SMTL ID : 5upg.1

Crystal structure of LpxC from Pseudomonas aeruginosa in complex with PF-5081090

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

2 x 8GJ: (2R)-4-[4-(2-fluoro-4-methoxyphenyl)-2-oxopyridin-1(2H)-yl]-N-hydroxy-2-methyl-2-(methylsulfonyl)butanamide(Non-covalent)

8GJ.1: 19 residues within 4Å: Chain A: L.19, H.20, M.63, E.78, H.79, T.191, F.192, G.193, F.194, I.198, L.201, G.210, A.215, V.217, H.238, K.239, D.242, H.265 Ligands: ZN.3 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.198, A:L.201, A:A.215, A:V.217 Hydrogen bonds: A:M.63, A:E.78 8GJ.2: 15 residues within 4Å: Chain A: A.85, G.86, F.153, F.177, S.178, S.179, T.180, S.181, F.182, S.253, L.254, I.295, S.296, Y.297, M.298 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.153, A:F.177, A:I.295, A:Y.297 Hydrogen bonds: A:S.181, A:F.182, A:L.254 Water bridges: A:V.183 pi-Stacking: A:F.153

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain A: H.79, T.191, H.238, D.242 Ligands: 8GJ.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.79, A:H.238, A:D.242, A:D.242 ZN.4: 3 residues within 4Å: Chain A: D.278, D.280 Ligands: CL.5 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.278, A:D.280

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 4 residues within 4Å: Chain A: R.134, D.278, D.280 Ligands: ZN.4 Ligand excluded by PLIP

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 6 residues within 4Å: Chain A: G.109, V.112, F.113, V.183, S.187, R.188 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.113, A:V.183, A:S.187 Water bridges: A:G.109 EDO.7: 1 residues within 4Å: Chain A: N.205 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.205 Water bridges: A:S.99, A:S.99, A:N.205 EDO.8: 6 residues within 4Å: Chain A: H.20, T.62, S.64, K.73, D.75, L.206 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.64, A:T.66, A:K.73 Water bridges: A:T.62, A:S.64, A:T.76 EDO.9: 2 residues within 4Å: Chain A: E.139, G.141 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.139, A:E.139 Water bridges: A:G.141 EDO.10: 6 residues within 4Å: Chain A: E.56, N.57, V.58, G.59, V.68, R.273 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.273, A:R.273 Water bridges: A:V.68 EDO.11: 2 residues within 4Å: Chain A: E.50, Y.93 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.50

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Phan, J.N. et al., Crystal structure of LpxC from Pseudomonas aeruginosa in complex with PF-5081090. to be published

Release Date

2017-03-29

Peptides

UDP-3-O-acyl-N-acetylglucosamine deacetylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

UDP-3-O-acyl-N-acetylglucosamine deacetylase

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